ArticleNucleic acids research2009
GeNMR: a web server for rapid NMR-based protein structure determination.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Probing Solution Dynamics of Tissue Factor Using Molecular Dynamics Simulations Guided by NMR Chemical Shifts.The journal of physical chemistry. B · 2026Article
- Recent Advances in NMR Protein Structure Prediction with ROSETTA.International journal of molecular sciences · 2023Review
- Insights to Human γD-Crystallin Unfolding by NMR Spectroscopy and Molecular Dynamics Simulations.International journal of molecular sciences · 2022Article
- Rapid and reliable protein structure determination via chemical shift threading.Journal of biomolecular NMR · 2018Article
- NMR Structure of the C-Terminal Transmembrane Domain of the HDL Receptor, SR-BI, and a Functionally Relevant Leucine Zipper Motif.Structure (London, England : 1993) · 2017Article
- A robust algorithm for optimizing protein structures with NMR chemical shifts.Journal of biomolecular NMR · 2015Article
- Computational modeling of membrane proteins.Proteins · 2015Review
- Article
- CSI 2.0: a significantly improved version of the Chemical Shift Index.Journal of biomolecular NMR · 2014Article
- Primary identification, biochemical characterization, and immunologic properties of the allergenic pollen cyclophilin cat R 1.The Journal of biological chemistry · 2014Article
- An overview of tools for the validation of protein NMR structures.Journal of biomolecular NMR · 2014Review
- Quality assessment of protein NMR structures.Current opinion in structural biology · 2013Review
- Modeling proteins using a super-secondary structure library and NMR chemical shift information.Structure (London, England : 1993) · 2013Article
- A unified NMR strategy for high-throughput determination of backbone fold of small proteins.Journal of structural and functional genomics · 2012Article
- Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.Journal of biomolecular NMR · 2012Article
- RNA-PAIRS: RNA probabilistic assignment of imino resonance shifts.Journal of biomolecular NMR · 2012Article
- Nuclear magnetic resonance signal chemical shifts and molecular simulations: a multidisciplinary approach to modeling copper protein structures.Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry · 2012Article
- SHIFTX2: significantly improved protein chemical shift prediction.Journal of biomolecular NMR · 2011Article
- Nutrigenetics, nutrigenomics, and selenium.Frontiers in genetics · 2011Article
- PROSESS: a protein structure evaluation suite and server.Nucleic acids research · 2010Article
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
GeNMR (GEnerate NMR structures) is a web server for rapidly generating accurate 3D protein structures using sequence data, NOE-based distance restraints and/or NMR chemical shifts as input. GeNMR accepts distance restraints in XPLOR or CYANA format as well as chemical shift files in either SHIFTY or BMRB formats. The web server produces an ensemble of PDB coordinates for the protein within 15-25 min, depending on model complexity and completeness of experimental restraints. GeNMR uses a pipeline of several pre-existing programs and servers to calculate the actual protein structure. In particular, GeNMR combines genetic algorithms for structure optimization along with homology modeling, chemical shift threading, torsion angle and distance predictions from chemical shifts/NOEs as well as ROSETTA-based structure generation and simulated annealing with XPLOR-NIH to generate and/or refine protein coordinates. GeNMR greatly simplifies the task of protein structure determination as users do not have to install or become familiar with complex stand-alone programs or obscure format conversion utilities. Tests conducted on a sample of 90 proteins from the BioMagResBank indicate that GeNMR produces high-quality models for all protein queries, regardless of the type of NMR input data. GeNMR was developed to facilitate rapid, user-friendly structure determination of protein structures via NMR spectroscopy. GeNMR is accessible at http://www.genmr.ca.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.